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Enhancing Library-Based Servicesfor
Clinical and Translational Researchers
Michele R. Tennant*, Rolando Garcia-Milian, Jennifer A.
Lyon,Hannah F. Norton, and Cecilia E. Botero
Health Science Center Libraries
* and UF Genetics Institute
University of Florida
Background
•
University of Florida awarded a CTSA in 2009
•
Over 800 investigators from all 16 of UF’s
colleges
•
•
Medicine, journalism, law, arts and sciences, etc.
Provost provided “Clinical Research Librarian”
position to work with CTSI
Objective
• Understand the information needs of UF CTSI
researchers
Bioinformatics
General
information
needs
Research data
management
Methods
 Online assessment questions.
 Sent to 814 affiliates of the University of Florida’s CTSI
Bioinformatics
General Information
Needs
Identify highly valued resources
Literature searching
Explore needs for:
Bibliographic management tools
- Advanced courses
Facilitating collaboration
-Consulting services
Assessing research impact
NIH Public Access policy, IRs, open
access
Systematic review assistance
BioinformaticsNeedsAssessment
Results: Bioinformatics Needs Assessment
Demographics
 Response rate 6.0% (49 respondents)
 84% of responses from faculty
9.4% from staff
 90% percent teams of 1-5 people using
bioinformatics software/analysis tools
 53% Medicine, followed by Dentistry (10.5%),
Veterinary Medicine (10.5%), Agriculture and Life
Sciences (7.9%), and Engineering (5.3%)
Results: Bioinformatics Needs Assessment
60.0%
Primary Field of Interest of Respondents
50.0%
45.7%
40.0%
31.4%
30.0%
25.7% 25.7%
20.0%
20.0%
10.0%
17.1% 17.1% 17.1%
8.6%
8.6%
5.7%
2.9%
2.9%
0.0%
n= 35
Othersincluded: Nutrition Medicine, Clinical Epidemiology and Health Services
Research, Physiology, Social Sciences, Pain Research, Pathophysiology, Health
Outcomes Research, Immunology, Protocol Development, Evolutionary Biology,
Phenotyping, Epidemiology, Population Health, and Health Equity.
Results: Bioinformatics Needs Assessment
60.0%
Bioinformatics Tools Used in Support of Research
50.0%
44.4%
44.4%
40.7%
40.0%
30.0%
20.0%
37.0%
25.9%
18.5%
11.1%
10.0%
7.4%
7.4%
0.0%
n= 27
Othersincluded: Metabolomics, data mining, database searching; population
statistics, individual patient level data
Results: Bioinformatics Needs Assessment
 Respondents not familiar with either commercial
software packages (e.g. BIOBASE, CLC Genomics,
Genego, etc) or the open access platform Galaxy
 Software that researchers would like to have available for
use
• CLC Genomics Workbench
• CLC Main Workbench
• Galaxy
• Ingenuity Pathway Analysis
• Pathway Studio from Ariadne
“If I knew more about commercial software,
I would find a use for them”
Results: Bioinformatics Needs Assessment
Training Interests of Respondents
Training Interests of Respondents
Number of
responses
(n= 32)
Statistical software (e.g. SAS, SPSS,
R/Bioconductor)
12
Genes and Expression (e.g. GEO)
6
Next Gen Sequence Analysis (e.g. Galaxy)
6
Curated gene-centered resources for human
and model organisms (e.g. Entrez gene,
RefSeq, etc.)
4
Genome sequence analysis using genome
browsers (e.g. UCSC, Ensembl)
4
Structure analysis (e.g how to visualize and
annotate 3D protein structures, identify
conserved domain, etc.)
4
Genetics & Medicine (e.g. OMIM, GeneTests,
ClinVar, etc)
3
Controlled vocabularies (e.g. Gene Ontology,
UMLS)
2
Other (please specify)
2
Sequence similarity analysis using BLAST
1
Preferred Mode of Instruction
 Online tutorials
 In person classroom
instruction
 Individual house call
General Information Needs
Assessment
Results: General Information Needs Assessment
Demographics
 Response rate 5.0% (41 respondents)
 95.1% of responses from faculty, with one staff and
one resident
 63.4% from the College of Medicine followed by
Dentistry (14.6%), Agricultural and Life Sciences (7.3%),
and Public Health and Health Professions (7.3%)
Results: General Information Needs Assessment
Library-based Services of Interest to CTS Researchers
IRB-related literaturesearches
Assist with/collaborate on systematic reviews
Perform general literaturesearches
Submit NIH-funded articlesto PMC
Assist with databaseselection /searchstrategy
Provide basic bioinformaticsresourcesupport
n= 26
Results: General Information Needs Assessment
Library-based Instruction of Interest to CTS Researchers
H
ow to enhance your research impact
What isthe UF- IR / how tosubmit research products
H
ow to effective/efficientlysearchscholarly literature
H
ow to assessyour research impact
Guidance on bioinformaticssupport available at UF
Best practicesin data manag., resources/ tool at UF
n= 23
Results: General Information Needs Assessment
 Respondents were generally more interested in learning
how to perform activities than having librarians perform
the same service for them, reinforcing the importance of
library/information instruction.
 Respondents indicated that suggested services and
learning opportunities were more important for them than
for others in their laboratories.
Results: General Information Needs Assessment
 Alternatively, more respondents were interested in
having librarians submit articles to PubMed Central
(57.7%) than in learning how to submit the articles
(47.8%).
 More respondents were interested in having librarians
assist/collaborate in the systematic review process
(65.4%) than in learning the details of the process
(60.9%).
Conclusions
Traditional library services, particularly bibliographic
instruction and mediated literature searching, continue to
be valuable to this specialized patron group. New areas of
interest include:
 instruction and increased collaboration in bioinformatics
 scholarly communication issues
 systematic review creation
 data management
 assessing research impact.
“What is Next”
 Perform interviews and focused discussions with
researchers regarding bioinformatics and general
information needs
 A Faculty Enhancement Opportunity project has been
funded, facilitating advanced training in the use of
bioinformatics tools beyond NCBI (e.g. IPA, GeneGo,
Partek Genomics Suite, CLC Main Workbench) for 3
HSCL librarians
 Develop innovative and relevant services for UF’s
CTSA community
 Evaluate and refine these services
Acknowledgements
William G. Farmerie, Associate Director for Emerging Science,
Interdisciplinary Center for Biotechnology Research, University of
Florida
Erik Deumens, Director of Research Computing, University of Florida
David Osterbur, Head, Public and Access Services at the Countway
Library of Medicine, Harvard Medical School
This project has been funded in part with federal funds from the
National Library of Medicine, National Institutes of Health, under
Contract # HHS-N-276-2011-00004-C.